SRX16495332
GSM6347220: TF ChIP-seq from HepG2 (ENCLB889MFV); Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HIC2

Cell type

Cell type Class
Liver
Cell type
Hep G2
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma Hepatocellular

Attributes by original data submitter

Sample

age
15 year
sample type
cell line
cell line
HepG2
sex
male
health state
hepatocellular carcinoma
dev stage
child
donor ID
ENCDO000AAC
lab
Richard Myers, HAIB
source
Richard Myers

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
pipeline protocol: https://www.encodeproject.org/documents/efac5344-6834-4e12-b971-94994d992e86/@@download/attachment/ChIP-seq_Mapping_Pipeline_Overview.pdf pipeline protocol: https://www.encodeproject.org/documents/d00ffce2-e72c-44d7-a71f-73fd163c2426/@@download/attachment/ChIP-seq_pipeline_overview.pdf extraction protocol: https://www.encodeproject.org/documents/73c95206-fc02-41ea-93e0-a929a6939aaf/@@download/attachment/ChIP-seq%20protocol%2C%20ENCODE4%2C%20Myers%20Lab.pdf pipeline protocol: https://www.encodeproject.org/documents/efac5344-6834-4e12-b971-94994d992e86/@@download/attachment/ChIP-seq_Mapping_Pipeline_Overview.pdf, pipeline protocol: https://www.encodeproject.org/documents/d00ffce2-e72c-44d7-a71f-73fd163c2426/@@download/attachment/ChIP-seq_pipeline_overview.pdf, extraction protocol: https://www.encodeproject.org/documents/73c95206-fc02-41ea-93e0-a929a6939aaf/@@download/attachment/ChIP-seq%20protocol%2C%20ENCODE4%2C%20Myers%20Lab.pdf

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
38299913
Reads aligned (%)
79.2
Duplicates removed (%)
8.1
Number of peaks
9522 (qval < 1E-05)

hg19

Number of total reads
38299913
Reads aligned (%)
78.6
Duplicates removed (%)
9.0
Number of peaks
9206 (qval < 1E-05)

Base call quality data from DBCLS SRA